tbuckley/cabot-search huggingface dataset:
Functional and Symptomatic Clinical Trial Endpoints
Authors: Mitchell A. Psotka, William T. Abraham, Mona Fiuzat, Gerasimos Filippatos, JoAnn Lindenfeld, Tariq Ahmad, G. Michael Felker, Richard Jacob, Dalane W. Kitzman, Eric S. Leifer, Eldrin F. Lewis, Robert J. Mentz, Richard Nkulikiyinka, Wei Ni, Daniel E. Schaber, Abhinav Sharma, Scott D. Solomon, Norman Stockbridge, John R. Teerlink, Ellis F. Unger, David J. Whellan, Janet Wittes, Stefan D. Anker, Christopher M. O’Connor
Journal: JACC Heart Failure (2022)

The Heart Failure Academic Research Consortium is a partnership between the Heart Failure Collaboratory (HFC) and the Academic Research Consortium (ARC) composed of patients, academic investigators from the United States and Europe, the U.S. Food and Drug Administration, the National Institutes of Health, payers, and industry. Members discussed the measure, remote capture, and clinical utility of functional and quality-of-life endpoints for use in clinical trials of heart failure and cardiovascular therapeutics, with the goal of improving the efficiency of heart failure and cardiovascular clinical research, evidence generation, and thereby patient quality of life, functional status, and survival. Assessments of patient-reported outcomes and maximal and submaximal exercise tolerance are standardized and validated, but actigraphy remains inconsistent as a potential endpoint. This paper details those discussions and consensus recommendations.
Precision medicine: Ray of hope in overcoming cancer multidrug resistance
Authors: Pankaj Musyuni, Jing Bai, Afsana Sheikh, Kirthanashri S. Vasanthan, Gaurav Kumar Jain, Mohammed A.S. Abourehab, Viney Lather, Geeta Aggarwal, Prashant Kesharwani, Deepti Pandita
Journal: Drug Resistance Updates (2022)
Olutasidenib alone or with azacitidine in IDH1-mutated acute myeloid leukaemia and myelodysplastic syndrome: phase 1 results of a phase 1/2 trial
Authors: Justin M Watts, Maria R Baer, Jay Yang, Thomas Prebet, Sangmin Lee, Gary J Schiller, Shira N Dinner, Arnaud Pigneux, Pau Montesinos, Eunice S Wang, Karen P Seiter, Andrew H Wei, Stephane De Botton, Montserrat Arnan, Will Donnellan, Anthony P Schwarer, Christian Récher, Brian A Jonas, P Brent Ferrell, Christophe Marzac, Patrick Kelly, Jennifer Sweeney, Sanjeev Forsyth, Sylvie M Guichard, Julie Brevard, Patrick Henrick, Hesham Mohamed, Jorge E Cortes
Journal: The Lancet Haematology (2022)
Cell–scaffold interactions in tissue engineering for oral and craniofacial reconstruction
Authors: Fushi Wang, Xinjie Cai, Ya Shen, Liuyan Meng
Journal: Bioactive Materials (2022)

Tissue engineering (TE) is critical in oral and craniofacial reconstruction. One of the most popular topics on the biomaterial-based tissue regeneration process may be the interaction between cells and scaffolds. An increasing number of studies have identified the variables affecting cell-scaffold interaction. The creation and investigation of new scaffolds for TE and regenerative medicine based on specific interactions have become possible owing to these findings. This review discusses the effects of various types of scaffold materials on cells in TE. Because the intrinsic properties of scaffolds are essential, the influence of the physical, chemical, mechanical, and biological characteristics of scaffold materials on cell-scaffold interaction that has been discovered in recent research is elaborated in this review. The components carried by scaffolds, the degradation process, and the role of degraded products in cell-scaffold interactions are examined. Further, the roles of cells, including cell types, functions, and adhesion mechanisms, and extracellular matrix are discussed. Finally, the latest research progress on cell-scaffold interactions among various engineered tissues or organs in the oral and craniofacial region is summarized. A deeper understanding of cell-scaffold interactions is anticipated to benefit the development of TE and regenerative medicine.
Multifaceted understanding of human nerve implants to design optimized electrodes for bioelectronics
Authors: Giacomo Valle, Giovanna Aiello, Federico Ciotti, Paul Cvancara, Tamara Martinovic, Tamara Kravic, Xavier Navarro, Thomas Stieglitz, Marko Bumbasirevic, Stanisa Raspopovic
Journal: Biomaterials (2022)

Bioelectronic medicine is a promising venue for treatment of disabilities using implantable neural interfaces. Peripheral neurostimulation of residual nerves recently enabled multiple functional benefits in amputees. Despite the preliminary promising impact on patients' life, the over-time stability of implants and the related nerve reactions are unclear. To unveil the mechanisms and inform the design of better nerve-electrode interfaces, we engaged a multifaceted approach, merging functional responses from patients, their histological data, and corresponding computational modelling. Neurostimulation evoked different selective sensation locations and qualities over-time, with respective perceptual thresholds, that showed different degree of time stabilities dependent from the stimulating active sites. The histological analysis after explant showed mild tissue reactions, while electromechanically active sites and substrates remained conserved. Computational models, based on patients' histology, revealed the direct influence of the simulated tissue reaction to change of thresholds and type of perceived sensations. Novel insights of electrode biocompatibility was observed compared to animals and the increase of thresholds could be predicted computationally. This multifaced framework suggest that future intraneural implants should have easier implantation and higher biocompatibility counteracting the sensations changes through AI-based stimulations and electrode coatings.
Efficacy of phage therapy in preclinical models of bacterial infection: a systematic review and meta-analysis
Authors: Sergio Alejandro Gómez-Ochoa, Melissa Pitton, Luca G Valente, Cristian David Sosa Vesga, Jorge Largo, Andrea Carolina Quiroga-Centeno, Juliana Alexandra Hernández Vargas, Silvia Juliana Trujillo-Cáceres, Taulant Muka, David R Cameron, Yok-Ai Que
Journal: The Lancet Microbe (2022)
Patient-centred models of hepatitis C treatment for people who inject drugs: a multicentre, pragmatic randomised trial
Authors: Alain H Litwin, Paula J Lum, Lynn E Taylor, Shruti H Mehta, Judith I Tsui, Judith Feinberg, Arthur Y Kim, Brianna L Norton, Moonseong Heo, Julia Arnsten, Paul Meissner, Alison Karasz, M Diane Mckee, John W Ward, Nirah Johnson, Irene Pericot-Valverde, Linda Agyemang, Ellen S Stein, Aurielle Thomas, Courtney Borsuk, Kendra L Blalock, Samuel Wilkinson, Katherine Wagner, Jillian Roche, Cristina Murray-Krezan, Jessica Anderson, Vanessa Jacobsohn, Anne F Luetkemeyer, Oluwaseun Falade-Nwulia, Kimberly Page
Journal: The Lancet. Gastroenterology & hepatology (2022)
Health and environmental impacts of plant-rich dietary patterns: a US prospective cohort study
Authors: Aviva A Musicus, Dong D Wang, Marie Janiszewski, Gidon Eshel, Stacy A Blondin, Walter Willett, Meir J Stampfer
Journal: The Lancet Planetary Health (2022)

BackgroundDiets that are rich in animal-based foods threaten planetary and human health, but plant-rich diets have varied health and environmental effects. We aimed to characterise a healthy dietary index and three plant-based indices by their environmental impacts and associations with risk of cardiovascular disease.MethodsIn this prospective cohort study, we used data from a food-frequency questionnaire in the US-based Nurses' Health Study II. Participants were categorised by quintiles of four dietary indices, including the alternative healthy eating index-2010 (AHEI), plant-based diet index (PDI), unhealthy PDI, and healthy PDI. We calculated environmental impacts (greenhouse gas emissions and irrigation water, nitrogenous fertiliser, and high-quality cropland needs), and relative risks (RRs) of cardiovascular disease from 1991–2017, comparing quintiles.FindingsWe included 90 884 participants in the health-impact analysis and 65 625 participants in the environmental-impact analysis. Comparing the top and bottom quintiles, higher AHEI scores were associated with a decreased cardiovascular disease risk (relative risk 0·77 [95% CI 0·66–0·89]); 30% lower greenhouse gas emissions (Q5 2·6 kg CO2 equivalent vs Q1 3·7 kg CO2 equivalent); and lower fertiliser, cropland, and water needs (all ptrends<0·0001). Similarly, the highest healthy PDI and PDI quintiles were associated with a decreased cardiovascular disease risk (healthy PDI 0·71 [0·60–0·83] and PDI 0·74 [0·63–0·85]) and lower environmental impacts (PDI water needs ptrend=0·0014; all other ptrends<0·0001). Conversely, the highest unhealthy PDI quintile had a higher cardiovascular disease risk compared with the lowest unhealthy PDI quintile (1·15 [1·00–1·33]; ptrend=0·023) and required more cropland (ptrend<0·0001) and fertiliser (ptrend=0·0008).InterpretationDietary patterns that are associated with better health had lower greenhouse gas emissions and nitrogenous fertiliser, cropland, and irrigation water needs. Not all plant-based diets conferred the same health and environmental benefits. US dietary guidelines should include nuanced consideration of environmental sustainability.FundingUS National Institutes of Health.
Advancing climate change health adaptation through implementation science
Authors: Gila Neta, William Pan, Kristie Ebi, Daniel F Buss, Trisha Castranio, Rachel Lowe, Sadie J Ryan, Anna M Stewart-Ibarra, Limb K Hapairai, Meena Sehgal, Michael C Wimberly, Leslie Rollock, Maureen Lichtveld, John Balbus
Journal: The Lancet Planetary Health (2022)
Ecological and socioeconomic factors associated with the human burden of environmentally mediated pathogens: a global analysis
Authors: Susanne H Sokolow, Nicole Nova, Isabel J Jones, Chelsea L Wood, Kevin D Lafferty, Andres Garchitorena, Skylar R Hopkins, Andrea J Lund, Andrew J MacDonald, Christopher LeBoa, Alison J Peel, Erin A Mordecai, Meghan E Howard, Julia C Buck, David Lopez-Carr, Michele Barry, Matthew H Bonds, Giulio A De Leo
Journal: The Lancet Planetary Health (2022)
JAMA Cardiology
Authors: Patrick O'gara, Marc Sabatine, Clyde Boston, Ann Yancy, Michael Pencina, Carolina North, Robert Harrington, Adrian Hernandez, Mhs Durham, North Carolina, Ajay Kirtane, New York, Roxana Mehran, Pradeep Natarajan, Kristen Boston, Seattle Patton, Washington Udelson, Sadiya Khan, Gregg Fonarow, Los Angeles, Sharlene Day, Laine Thomas, Akhil Narang, Julia Getts, Eugene Braunwald, Judith Hochman, Donald Lloyd-Jones, Scm Chicago, Michael Parmacek, Daniel Simon, Sidney Smith, Chapel Hill, Carolina Douglas, E Vaughan, Myron Weisfeldt, Maryland Douglas, P Zipes, Paul Armstrong, Shinya Goto, Peter Liu, Renato Lopes, Carolina Prabhakaran, Hugh Watkins, Harvey White, Habib Yacoub, Frs London, Gregory Curfman, Annette Flanagin, Robert Golub, Michael Berkwits, Brenda Gregoline, Tracy Frey, Iris Lo, Kevin Brown, Bernadette Hromin, Erin Keenan, Rebecca Langley, Kris Simmons, Connie Manno, Sara Billings, Doug Brandt, Timothy Gray, Peter Olson, Juliet Orellana, Paul Ruich, Kirby Snell, Judith Ahlers, Stephanie Beckmeyer, Dawn Bielawski, Jane Calayag, Jan Clavey, Mary Coerver-Connolly, Amy Eutsey, Paul Jaworski, Ruth Kaufman, Laura King, Martha Lentz, Jenny Mackay, Nellie Mcgrew, Charon Pierson, Lori Ryan, Thressa Smith, Divya Sreekumar, Donna Thordsen, Christine Tilles, Emma Underdown, Cara Wallace, Becki Weiss, Christina West, Caroline Woods, Erin Kato, Jacob Kendall-Taylor, Monica Mungle, Lenette Gardner-Gullens, Fanny Brown, Anna Bukowski, Lee Calibeo, Jordan Faber, Andrew Given, Tosca Hall, Kenneth Otani, Caroline Sietmann, Angelia Waltower, Jesse Mcquarters, Elena Guobyte, Daniel Morrow, Shelly Steff, Deanna Bellandi, Jim Michalski, Eman Aly, Reuben Rios, Mary Ferkaluk, Jonathan Laxamana, Sidra Bonner, Heather Hsu, Andrew Ibrahim, Karen Bucher, Andy Rekito, Nick Reback, Lohitha Kethu, Marla Erson, Cheryl Sykes, Joseph Thornton, Julie Burton, Ronna Hewitt, Mary Sieck, Geneine Someren, Jamaal Vargas, Content Systems, Mike Bujewski, Nathan Mitre, Digital Production, Regina Brownlee, Amanda Camino, Brenda Chandler-Grayer, Emily Dunn, Amy Evers, Maleeka Holden, Teri Hutchison, Dan Knowles, Joshua Lampinen, Natalie Marsh, Patricia Panek, Marla Seidell, La Son, Diggs Sledge, Julian Graphics, Joe Amft, Jonathan Chala, Maria Duda, Fred Furtner, Carolyn Hall, Maria Kowalkowski, Joy Farrell, Maria Giannini, Sasha Grossman, Kate Lander, Judith Literskis, Teresa Omiotek, Michael Ryder, James Madara, Kirsten Bibbins-Domingo, Robert Bonow
Journal: JAMA Cardiology (2022)

science, and evidence-based health policy.Health equity, especially when supported by original science, is a leading editorial priority.
2022 American College of Rheumatology/EULAR Classification Criteria for Giant Cell Arteritis
Authors: Cristina Ponte, Peter C. Grayson, Joanna C. Robson, Ravi Suppiah, Katherine Bates Gribbons, Andrew Judge, Anthea Craven, Sara Khalid, Andrew Hutchings, Richard A. Watts, Peter A. Merkel, Raashid A. Luqmani
Journal: Arthritis & Rheumatology (2022)

Objective To develop and validate updated classification criteria for giant cell arteritis (GCA). Methods Patients with vasculitis or comparator diseases were recruited into an international cohort. The study proceeded in 6 phases: 1) identification of candidate items, 2) prospective collection of candidate items present at the time of diagnosis, 3) expert panel review of cases, 4) data‐driven reduction of candidate items, 5) derivation of a points‐based risk classification score in a development data set, and 6) validation in an independent data set. Results The development data set consisted of 518 cases of GCA and 536 comparators. The validation data set consisted of 238 cases of GCA and 213 comparators. Age ≥50 years at diagnosis was an absolute requirement for classification. The final criteria items and weights were as follows: positive temporal artery biopsy or temporal artery halo sign on ultrasound (+5); erythrocyte sedimentation rate ≥50 mm/hour or C‐reactive protein ≥10 mg/liter (+3); sudden visual loss (+3); morning stiffness in shoulders or neck, jaw or tongue claudication, new temporal headache, scalp tenderness, temporal artery abnormality on vascular examination, bilateral axillary involvement on imaging, and fluorodeoxyglucose–positron emission tomography activity throughout the aorta (+2 each). A patient could be classified as having GCA with a cumulative score of ≥6 points. When these criteria were tested in the validation data set, the model area under the curve was 0.91 (95% confidence interval [95% CI] 0.88–0.94) with a sensitivity of 87.0% (95% CI 82.0–91.0%) and specificity of 94.8% (95% CI 91.0–97.4%). Conclusion The 2022 American College of Rheumatology/EULAR GCA classification criteria are now validated for use in clinical research.
Geographic Accessibility of COVID-19 Test to Treat Sites by Race, Ethnicity, Age, and Rurality
Authors: Rohan Khazanchi, Andrew Strumpf, Utibe R. Essien, Samuel D. Powers, Kathleen A. McManus
Journal: JAMA Network Open (2022)

This cross-sectional study explores geographic disparities in antiviral access by quantifying the accessibility of COVID-19 Test to Treat sites for subpopulations by race, ethnicity, age, and rurality.
A Man in His 50s With Cardiac Tamponade From Ruptured Coronary Artery Aneurysm
Authors: Hongwei Zhang, Hao Niu, Zhenghua Xiao
Journal: JAMA Cardiology (2022)

This case report describes a diagnosis of cardiac tamponade secondary to ruptured coronary artery aneurysm in a man who presented with acute chest pain and dyspnea.
Retained introns in long RNA-seq reads are not reliably detected in sample-matched short reads
Authors: Julianne K. David, Sean K. Maden, Mary A. Wood, Reid F. Thompson, Abhinav Nellore
Journal: Genome biology (2022)

There is growing interest in retained introns in a variety of disease contexts including cancer and aging. Many software tools have been developed to detect retained introns from short RNA-seq reads, but reliable detection is complicated by overlapping genes and transcripts as well as the presence of unprocessed or partially processed RNAs.We compared introns detected by 8 tools using short RNA-seq reads with introns observed in long RNA-seq reads from the same biological specimens. We found significant disagreement among tools (Fleiss' [Formula: see text]) such that 47.7% of all detected intron retentions were not called by more than one tool. We also observed poor performance of all tools, with none achieving an F1-score greater than 0.26, and qualitatively different behaviors between general-purpose alternative splicing detection tools and tools confined to retained intron detection.Short-read tools detect intron retention with poor recall and precision, calling into question the completeness and validity of a large percentage of putatively retained introns called by commonly used methods.
Altered Glucose Metabolism Postchemotherapy Precedes PSMA Expression in Poorly Differentiated Prostate Cancer
Authors: Yazan Z. Alabed
Journal: Clinical Nuclear Medicine (2022)

A 73-year-old man presented with gastric lesion on upper endoscopy, biopsy-proven as poorly differentiated carcinoma. Staging FDG PET/CT scan showed gastric, intraprostatic, nodal, and extensive osseous lesions. Prostate-specific antigen levels were greater than 1000. The patient was treated as metastatic poorly differentiated prostate cancer with chemotherapy. Posttherapy 18 F-PSMA-1007 and FDG PET/CT scans were obtained. PSMA PET/CT scan revealed extensive disease similar in appearance as staging FDG PET/CT scan, indicating no apparent treatment response. FDG PET/CT scan showed partial metabolic response, correlating with improved prostate-specific antigen levels. This case indicates that chemotherapy-induced changes in glucose metabolism likely precede change in PSMA expression in poorly differentiated prostate cancer.
Protection from previous natural infection compared with mRNA vaccination against SARS-CoV-2 infection and severe COVID-19 in Qatar: a retrospective cohort study
Authors: Hiam Chemaitelly, Houssein H Ayoub, Sawsan AlMukdad, Peter Coyle, Patrick Tang, Hadi M Yassine, Hebah A Al-Khatib, Maria K Smatti, Mohammad R Hasan, Zaina Al-Kanaani, Einas Al-Kuwari, Andrew Jeremijenko, Anvar Hassan Kaleeckal, Ali Nizar Latif, Riyazuddin Mohammad Shaik, Hanan F Abdul-Rahim, Gheyath K Nasrallah, Mohamed Ghaith Al-Kuwari, Adeel A Butt, Hamad Eid Al-Romaihi, Mohamed H Al-Thani, Abdullatif Al-Khal, Roberto Bertollini, Laith J Abu-Raddad
Journal: The Lancet Microbe (2022)
Considering individual differences and variability is important in the development of the bifocal stance theory
Authors: Hannah Puttre, Kathleen H. Corriveau
Journal: Behavioral and Brain Sciences (2022)

Abstract Jagiello and colleagues offer a bifocal stance theory of cultural evolution for understanding how individuals flexibly choose between instrumental and ritual stances in social learning. We argue that the role of culture, developmental age-related differences, and the intersectionality of these and other individual's identities need to be more fully considered in this theoretical framework.
Combining digital adherence technology and therapeutic drug monitoring for personalised tuberculosis care
Authors: Samiksha Ghimire, Deni Iskandar, Roelina van der Borg-Boekhout, Marina Zenina, Mathieu S. Bolhuis, Huib A.M. Kerstjens, Marieke van Rossum, Daan J. Touw, Tanja R. Zijp, Job F.M. van Boven, Onno W. Akkerman
Journal: European Respiratory Journal (2022)

<b>Digital adherence technology in combination with therapeutic drug monitoring could aid in supporting adherence and personalising dosing while at the same time supporting patients to carry out TB medication related tasks independently</b>https://bit.ly/3gh1A1c
On the evolutionary origins of the bifocal stance
Authors: Walter Veit, Heather Browning
Journal: Behavioral and Brain Sciences (2022)

Abstract In this commentary we advance Jagiello et al.'s proposal by zooming in on the possible evolutionary origins of the “bifocal stance” that may have enabled a major transition in human cultural evolution, arguing that the evolution of the bifocal stance was driven by an explosion in cultural complexity arising from cooperative foraging, which led to a feedback loop between the ritual and instrumental stances.
Can bifocal stance theory explain children's selectivity in active information transmission?
Authors: Marina Bazhydai, Didar Karadağ
Journal: Behavioral and Brain Sciences (2022)

To shed light on the key premise of the bifocal stance theory (BST) that social learners flexibly take instrumental and ritual stances, we focus on developmental origins of child-led information transmission, or teaching, as a core social learning strategy. We highlight children's emerging selectivity in information transmission influenced by epistemic and social factors and call for systematic investigation of proposed stance-taking.
Adaptation in Outbred Sexual Yeast is Repeatable, Polygenic and Favors Rare Haplotypes
Authors: Robert A Linder, Behzad Zabanavar, Arundhati Majumder, Hannah Chiao-Shyan Hoang, Vanessa Genesaret Delgado, Ryan Tran, Vy Thoai La, Simon William Leemans, Anthony D Long
Journal: Molecular Biology and Evolution (2022)

We carried out a 200 generation Evolve and Resequence (E&R) experiment initiated from an outbred diploid recombined 18-way synthetic base population. Replicate populations were evolved at large effective population sizes (>105 individuals), exposed to several different chemical challenges over 12 weeks of evolution, and whole-genome resequenced. Weekly forced outcrossing resulted in an average between adjacent-gene per cell division recombination rate of ∼0.0008. Despite attempts to force weekly sex, roughly half of our populations evolved cheaters and appear to be evolving asexually. Focusing on seven chemical stressors and 55 total evolved populations that remained sexual we observed large fitness gains and highly repeatable patterns of genome-wide haplotype change within chemical challenges, with limited levels of repeatability across chemical treatments. Adaptation appears highly polygenic with almost the entire genome showing significant and consistent patterns of haplotype change with little evidence for long-range linkage disequilibrium in a subset of populations for which we sequenced haploid clones. That is, almost the entire genome is under selection or drafting with selected sites. At any given locus adaptation was almost always dominated by one of the 18 founder's alleles, with that allele varying spatially and between treatments, suggesting that selection acts primarily on rare variants private to a founder or haplotype blocks harboring multiple mutations.
Implications of instrumental and ritual stances for traditionalism–threat responsivity relationships
Authors: Theodore Samore, Daniel M T Fessler
Journal: Behavioral and Brain Sciences (2022)

Jagiello et al.'s bifocal stance theory provides a useful theoretical framework for attempting to understand the connection between greater adherence to traditional norms and greater sensitivity to threats in the world. Here, we examine the implications of the instrumental and ritual stances with regard to various evolutionary explanations for traditionalism-threat sensitivity linkages.
Molecular Function and Contribution of <i>TBX4</i> in Development and Disease
Authors: Justyna A. Karolak, Carrie L. Welch, Christian Mosimann, Katarzyna Bzdęga, James D. West, David Montani, Mélanie Eyries, Mary P. Mullen, Steven H. Abman, Matina Prapa, Stefan Gräf, Nicholas W. Morrell, Anna R. Hemnes, Frédéric Perros, Rizwan Hamid, Malcolm P. O. Logan, Jeffrey Whitsett, Csaba Galambos, Paweł Stankiewicz, Wendy K. Chung, Eric D. Austin
Journal: American Journal of Respiratory and Critical Care Medicine (2022)

Over the past decade, recognition of the profound impact of the